RnoALTD0020438-3/3 @ rn6
Alternative 5'ss
Gene
ENSRNOG00000012682 | Nr5a1
Description
nuclear receptor subfamily 5, group A, member 1 [Source:RGD Symbol;Acc:68350]
Coordinates
chr3:23013937-23016566:-
Coord C1 exon
chr3:23016485-23016566
Coord A exon
chr3:23016317-23016484
Coord C2 exon
chr3:23013937-23014565
Length
168 bp
Sequences
Splice sites
5' ss Seq
CAGGTGATT
5' ss Score
5.95
3' ss Seq
CAGACTGCTCCTGCCCACAGCTG
3' ss Score
8.43
Exon sequences
Seq C1 exon
GGCTTCTTCAAGCGCACAGTCCAGAACAACAAGCATTACACGTGCACCGAGAGTCAGAGCTGCAAAATCGACAAGACGCAGC
Seq A exon
GTAAGCGCTGTCCCTTCTGCCGCTTCCAGAAGTGCCTGACGGTGGGCATGCGCCTGGAAGGTGCGCGTCCTGCACGCCCGGGACCCCTGACTGCTGGCCGCCCCCAGGGAGCCGCGGGCGGGCCTGGGAGAGGGGCTGAGGGGAAAGCCGAGCAGTTTCTGGATCCAG
Seq C2 exon
CTGTGCGTGCTGATCGAATGCGGGGCGGCCGGAACAAGTTTGGGCCCATGTACAAGAGAGACCGGGCCTTGAAGCAGCAGAAGAAAGCACAGATTCGGGCCAATGGCTTCAAACTGGAGACCGGACCACCGATGGGGGTTCCCCCGCCACCCCCTCCCCCACCGGACTACATGTTACCCCCTAGCCTGCATGCACCGGAGCCCAAGGCCCTGGTCTCTGGCCCACCCAGTGGGCCGCTGGGTGACTTTGGAGCCCCATCTCTGCCCATGGCCGTGCCTGGTCCCCACGGGCCTCTGGCTGGCTACCTCTATCCTGCCTTCTCTAACCGCACCATCAAGTCTGAGTATCCAGAGCCCTACGCCAGCCCCCCTCAACAGCCAGGGCCACCCTACAGCTATCCGGAGCCCTTCTCAGGAGGGCCCAATGTACCAGAGCTCATATTGCAGCTGCTGCAACTAGAGCCAGAGGAGGACCAGGTGCGTGCTCGCATCGTGGGCTGC
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000012682-6-2,7-2,8-2-3/3
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (No Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.538
Domain overlap (PFAM):
C1:
PF0010513=zf-C4=PD(64.3=93.8)
A:
NA
C2:
PF0010425=Hormone_recep=PU(19.8=19.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTTCAAGCGCACAGTCCAGAA
R:
TAACATGTAGTCCGGTGGGGG
Band lengths:
253-421
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]